Crystal structure of the CD7 ectodomain bound to K12

entry_id	12np
deposition_date	2026-04-13
last_revision	2026-05-06
title	Crystal structure of the CD7 ectodomain bound to K12
keywords	Immunoglobulin, Immunoreceptor, surface receptor, IMMUNE SYSTEM; IMMUNE SYSTEM
method	X-RAY DIFFRACTION

rg_guinier	34.70 Å
rg_electron	34.01 Å
i0	167621000.00
molecular_weight	97670.0 kDa
excluded_volume	119770 ų
envelope_volume	161550 ų
shell_volume	40058 ų
envelope_diameter	118.9 Å
shell_rg	39.91 Å
envelope_rg	33.52 Å
shape_rg	34.00 Å
total_rg	34.50 Å
total_atoms	6867
n_residues	889
n_harmonics	20
q_range	— – 0.5000 Å−1
n_points	101
shell_type	directional
solvent_density	0.3340 e/ų
contrast_shell	0.0300 e/ų
crysol_version	4.1.3

dmax	110.3 Å
rg_real	34.59 Å
rg_real_error	0.87 Å
i0_real	1.6760e+08
i0_real_error	2.7620e+06
rg_reciprocal	34.66 Å
i0_reciprocal	167600000.0000
total_estimate	0.8971
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	48.0 Å
skewness	0.149
kurtosis	-0.472
angular_range	— – 0.2300 Å−1
current_alpha	0.0000
highest_alpha	20790000.0000
n_real_points	47
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.922; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.892

Unit Cell

length_a	49.681 Å
length_b	121.950 Å
length_c	88.871 Å
angle_alpha	90.00 °
angle_beta	102.99 °
angle_gamma	90.00 °
z_pdb	8

Symmetry

space_group	P 1 21 1
int_tables_number	4
crystal_system	monoclinic

Refinement

resolution	2.400 Å
resolution_low	44.990 Å
r_factor	0.2431
r_work	0.2414
r_free	0.2781

Diffraction

temperature

100.0 K

Files (7)

• pr_distribution /app/data/pr_computation/2n/12np/pr_distribution.json
• pr_output /app/data/pr_computation/2n/12np/12np.pr.out
• pr_plot /app/data/visualization/pr_computation/2n/12np/12np_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/2n/12np/12np.dat
• saxs_fit /app/data/saxs_computation/2n/12np/12np.fit
• saxs_log /app/data/saxs_computation/2n/12np/12np.log
• saxs_plot /app/data/visualization/saxs_computation/2n/12np/12np_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/2n/12np/12np.fit
pddf	/app/data/pr_computation/2n/12np/12np.pr.out
profile	/app/data/saxs_computation/2n/12np/12np.dat